Bioinformatic Tools in Crop Improvement - Crop Improvement: New Approaches and Modern Techniques - page 80

Table 2.7 Integrative databases for Sub-cellular Proteomics and Protein Modification analysis
in plants
Database Name Plant Species/Purpose Uniform Resource Locator (URL)

Enzyme
Database—
BRENDA

A comprehensive protein and
enzyme information search and
retrevel data system; an impor-
tant proteomics site

http://www.brenda-enzymes.org/

Rice Proteome
Database

Rice proteome database; protocols
and tools including sub-cellular
proteins and modifications of
proteins

http://gene64.dna.affrc.go.jp/RPD/

Proteomics
Database for
Arabidopsis
data

Arabidopsis NASC) proteome
database; protocols and tools
including sub-cellular and modi-
fications of proteins

http://proteomics.arabidopsis.info/

SUBA II Search engine for Arabidopsis pro-

teins, including phosphoproteins
and protein modifications

http://suba.plantenergy.uwa.edu.au/

My 2D-PAGE—
map viewer

Soybean proteome database; 2D
protocols and tools including
sub-cellular and modifications of
proteins

http://proteome.dc.affrc.go.jp/cgi-
bin/2d/2d_view_map.cgi

PhosPhAt 3.0 Protein phosphorylation database

mainly using MS, and predictor
software

http://phosphat.mpimp-golm.mpg.
de/

P3DB—Plant
Protein Phos-
phorylation
DataBase

Plant protein phosphorylation data-
base for 6 plants, but contains
over 11,000 phosphoproteins and
32,000 phosphosites

http://www.p3db.org/

GOBASE—The
Organelle
Genome
Database

Gene databank for cell
orgamelles and sub-cellular
compartmentation

http://gobase.bcm.umontreal.ca/

Soybean Proteome Database

The soybean proteome database also provides 2-DEdata for various tissues, as well
as for subcellular compartments and organelles (Sakata et al. 2009 ).

Gramene

A database for plant comparative genomics and proteomics providing information
on monocotyledon (grass) plant species, and is cross linked to the GenBank protein
and organelle databases (Ware 2007 ).